An New Frontier in Design: The Simulation of Open Engineered Biological Systems

设计新前沿：开放工程生物系统的模拟

• 批准号: EP/K039083/1
• 负责人: Nicholas Wright
• 金额: $ 710.62万
• 依托单位: Newcastle University
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2013
• 资助国家: 英国
• 起止时间: 2013 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=EP%2FK039083%2F1
• 关键词: New; Frontier; Design; Simulation; Open

Biology will lie at the heart of many 21st century technologies to sustainably address the numerous challenges facing societies such as waste, energy, water, healthcare, new chemicals and materials, and agriculture. This ambitious project seeks to develop a suite of universal principles and models for the scalable simulation of open biological systems thereby allowing the engineering of new functionalities offered by natural or synthetic, mainly micro-, organisms for the benefit of mankind. We live in a world that is increasingly urbanising and populated putting many pressures on the globe and its natural resources. One of the biggest challenges is sustaining global health, prosperity and well-being in a way that does not harm societies requiring these benefits nor the earth's natural resources. In the last two centuries, engineering has been central in providing the infrastructure and resources responsible for these societal gains. The engineering challenge in the 21st century is to continue to make these, and new, provisions for more people in a more sustainable way. Thomas Tredgold, the first President of the Institute of Civil Engineers, defined engineering as "the art of directing the great sources of Power in Nature for the use and benefit of mankind". Engineering has expanded as it has sought and exploited new sources of Power in Nature and new concepts and tools by which said sources can be manipulated. Many believe that Biology is the next source of Power and that Engineering Biology it will be central to our goal of generating a new suite of intrinsically sustainable technologies. However, there is a substantial gap between rhetoric and reality in many accounts of the application of engineering biology. We will only open up this frontier if we are a brutally honest about the limitations, astute in our analysis of the bottlenecks and effective in innovations to obviate them. Though this is a contemporary challenge, it is something engineers have always done, using mathematical models and scientific principles to winnow the pipe dreams from the awesome but achievable (Rankine, 1855). One of the greatest limitations in biology is taking what is possible in the test-tube and making it a reality in the reactor or environment; using relatively cheap resources and in the face of a large and highly diverse natural microbial population. In this project, we seek to use the best scientific principles and theories to develop a suite of universal principles and models for the scalable simulation of open biological systems. These models will allow the engineering design of new functionalities offered by natural or synthetic organisms for the benefit of mankind for a range of technologies addressing a range of different challenges.

生物学将成为许多21世纪世纪技术的核心，以可持续地解决社会面临的众多挑战，如废物，能源，水，医疗保健，新化学品和材料以及农业。这一雄心勃勃的项目旨在开发一套通用的原则和模型，用于开放生物系统的可扩展模拟，从而允许工程设计天然或合成（主要是微生物）生物体提供的新功能，以造福人类。我们生活在一个日益城市化和人口稠密的世界，这给地球仪及其自然资源带来了许多压力。最大的挑战之一是维持全球的健康、繁荣和福祉，同时又不损害需要这些利益的社会，也不损害地球的自然资源。在过去的两个世纪里，工程一直是提供基础设施和资源的核心，负责这些社会收益。世纪的工程挑战是继续以更可持续的方式为更多的人提供这些新的规定。土木工程师学会的第一任主席托马斯特雷德戈尔德将工程定义为“为人类的利益而引导自然界巨大力量的艺术”。工程学已经扩展，因为它已经在自然界中寻找和开发新的力量来源，以及可以操纵这些来源的新概念和工具。许多人认为生物学是下一个能源，而工程生物学将是我们产生一套新的内在可持续技术的目标的核心。然而，在工程生物学的应用的许多帐户之间的修辞和现实有很大的差距。只有当我们对局限性非常诚实，对瓶颈进行敏锐的分析并有效地进行创新以克服它们时，我们才能打开这一领域。虽然这是一个当代的挑战，但它是工程师一直在做的事情，使用数学模型和科学原理从可怕但可实现的梦想中剔除白日梦（Rankine，1855）。生物学最大的限制之一是将试管中的可能性转化为反应堆或环境中的现实;使用相对便宜的资源，并面对大量和高度多样化的天然微生物种群。在这个项目中，我们寻求使用最好的科学原理和理论来开发一套通用的原则和模型，用于开放生物系统的可扩展模拟。这些模型将允许对自然或合成生物体提供的新功能进行工程设计，以造福人类，用于解决一系列不同挑战的一系列技术。

项目成果

Communicating Structure and Function in Synthetic Biology Diagrams.

• DOI: 10.1021/acssynbio.9b00139
• 发表时间: 2019-08-16
• 期刊: ACS synthetic biology
• 影响因子: 4.7
• 作者: Beal J;Nguyen T;Gorochowski TE;Goñi-Moreno A;Scott-Brown J;McLaughlin JA;Madsen C;Aleritsch B;Bartley B;Bhakta S;Bissell M;Castillo Hair S;Clancy K;Luna A;Le Novère N;Palchick Z;Pocock M;Sauro H;Sexton JT;Tabor JJ;Voigt CA;Zundel Z;Myers C;Wipat A
• 通讯作者: Wipat A

Looking for lipases and lipolytic organisms in low-temperature anaerobic reactors treating domestic wastewater

• DOI: 10.1101/2021.11.16.468786
• 发表时间: 2021-11
• 期刊: bioRxiv
• 作者: R. Bashiri;B. Allen;B. Shamurad;M. Pabst;T. Curtis;I. D. Ofiţeru

Modelling the nanomechanical response of a micro particle-matrix system for nanoindentation tests.

模拟用于纳米压痕测试的微米颗粒基体系统的纳米力学响应。

• DOI: 10.1088/0957-4484/27/19/195703
• 发表时间: 2016
• 期刊: Nanotechnology
• 影响因子: 3.5
• 作者: Cao Y

Influence of surface roughness on the initial formation of biofilm

• DOI: 10.1016/j.surfcoat.2015.07.062
• 发表时间: 2015-12-25
• 期刊: SURFACE & COATINGS TECHNOLOGY
• 影响因子: 5.4
• 作者: Ammar, Yasmine;Swailes, David;Chen, Jinju
• 通讯作者: Chen, Jinju